Query psy12308
Match_columns 251
No_of_seqs 36 out of 38
Neff 2.2
Searched_HMMs 29240
Date Fri Aug 16 15:44:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12308.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/12308hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4ef1_A Pheromone COB1/lipoprot 32.2 14 0.00048 32.1 1.0 46 140-187 77-126 (246)
2 4got_A Methionine-binding lipo 28.3 18 0.00061 31.6 1.0 46 140-187 80-129 (249)
3 3up9_A Putative uncharacterize 25.7 16 0.00053 31.9 0.2 46 140-187 81-130 (245)
4 3ir1_A Outer membrane lipoprot 23.1 19 0.00064 31.5 0.2 46 140-187 75-124 (245)
5 3n29_A Carboxynorspermidine de 22.9 26 0.0009 31.5 1.1 44 142-186 39-92 (418)
6 2lnk_A Protein S100-A4; EF-han 18.9 2.5E+02 0.0087 20.8 5.7 18 172-189 61-78 (113)
7 3gxa_A Outer membrane lipoprot 17.0 34 0.0012 30.4 0.5 46 140-187 97-146 (275)
8 1hsk_A UDP-N-acetylenolpyruvoy 15.5 65 0.0022 28.0 1.9 67 100-185 1-68 (326)
9 1sf8_A Chaperone protein HTPG; 14.9 1.4E+02 0.0046 23.4 3.4 73 100-183 1-84 (126)
10 3c0t_A Mediator of RNA polymer 11.8 53 0.0018 28.6 0.2 27 59-94 32-58 (207)
No 1
>4ef1_A Pheromone COB1/lipoprotein, YAEC family; periplasmic methionine binding protein, NLPA lipoprotein, ST genomics; 1.90A {Enterococcus faecalis} PDB: 4ef2_A*
Probab=32.20 E-value=14 Score=32.06 Aligned_cols=46 Identities=20% Similarity=0.288 Sum_probs=29.6
Q ss_pred eeccccCCCcccccchhHHHHHhhhc-cCcee--cCCCc-hHHHHHHHHHHh
Q psy12308 140 VVNRPYNTPIGLYSEQNIVDSINHHY-KKTVV--YDPAK-SETFKALQEEEL 187 (251)
Q Consensus 140 vVhkQfNSPIGLYSd~NIaeTl~~Q~-K~~v~--YDpan-SEtyRaLQEee~ 187 (251)
.|-.-|..||||||.. -.+|..-. ...+. -|++| +-.|++||+.++
T Consensus 77 ~v~~~~~~p~glYS~k--iksl~dL~~Ga~IAIpnd~sn~~RaL~lL~~~GL 126 (246)
T 4ef1_A 77 NAGAIHLEPVGLYSKK--YKSLQEIPDGSTIYVSSSVSDWPRVLTILEDAGL 126 (246)
T ss_dssp EEEEEEECCCEEECSS--CSSGGGSCTTCEEEEESCGGGHHHHHHHHHHTTS
T ss_pred EEeeccccceEEecCC--CCCHHHcCCCCEEEeecCCchHHHHHHHHHHCCC
Confidence 4456688999999974 23333322 12233 37877 678888988886
No 2
>4got_A Methionine-binding lipoprotein METQ; NLPA lipoprotein, PF03180 family, structural genomics, joint for structural genomics, JCSG; HET: MSE; 1.95A {Bacillus subtilis subsp}
Probab=28.32 E-value=18 Score=31.59 Aligned_cols=46 Identities=17% Similarity=0.270 Sum_probs=28.5
Q ss_pred eeccccCCCcccccchhHHHHHhhhccCcee---cCCCc-hHHHHHHHHHHh
Q psy12308 140 VVNRPYNTPIGLYSEQNIVDSINHHYKKTVV---YDPAK-SETFKALQEEEL 187 (251)
Q Consensus 140 vVhkQfNSPIGLYSd~NIaeTl~~Q~K~~v~---YDpan-SEtyRaLQEee~ 187 (251)
.|-.-|-.||||||.. -.+|..-..+..+ =||+| +-.|++||+.++
T Consensus 80 ~v~~~~~~P~glYS~k--~ksl~dl~~Ga~IaIPnDptN~~RaL~lL~~aGL 129 (249)
T 4got_A 80 NAGAVHLEPFGIYSKT--YKSLKDLPDGATIILTNNVAEQGRMLAMLENAGL 129 (249)
T ss_dssp EEEEEEECCCEEECSS--CSSGGGCCTTCEEEEECCGGGHHHHHHHHHHTTS
T ss_pred EeeeeeeccccccccC--cCchhhcCCCCEEEEecCccchHHHHHHHHHCCC
Confidence 3456788999999986 2222222222222 27766 567888888875
No 3
>3up9_A Putative uncharacterized protein; membrane lipoprotein, L-methionine binding protein, NLPA LIP structural genomics; HET: PG4 PE4; 2.35A {Actinomyces odontolyticus} SCOP: c.94.1.0
Probab=25.69 E-value=16 Score=31.93 Aligned_cols=46 Identities=20% Similarity=0.289 Sum_probs=28.1
Q ss_pred eeccccCCCcccccchhHHHHHhhhccCce---ecCCCc-hHHHHHHHHHHh
Q psy12308 140 VVNRPYNTPIGLYSEQNIVDSINHHYKKTV---VYDPAK-SETFKALQEEEL 187 (251)
Q Consensus 140 vVhkQfNSPIGLYSd~NIaeTl~~Q~K~~v---~YDpan-SEtyRaLQEee~ 187 (251)
.|-.-|..||||||.. -.+|..-..+.. --||+| +-.|++||+.++
T Consensus 81 ~v~~~~~~p~giYS~k--~ksl~dL~~Ga~IaIPnD~tN~~RaL~lL~~aGL 130 (245)
T 3up9_A 81 AGEGIHLEPLGVFSNK--HKSLDELPDGGTIGIISDTANQSRALELLATQGL 130 (245)
T ss_dssp ECCCCEECCCEEECSS--CSCGGGCCTTEEEEEECSHHHHHHHHHHHHHTTS
T ss_pred EEeeecccceEEEeCC--CCCHHHcCcCCEEEEecCcchHHHHHHHHHHCCC
Confidence 3446678899999975 223333232222 227766 557888888876
No 4
>3ir1_A Outer membrane lipoprotein GNA1946; D-methionine cultured, protein binding; 2.15A {Neisseria meningitidis}
Probab=23.07 E-value=19 Score=31.55 Aligned_cols=46 Identities=24% Similarity=0.372 Sum_probs=27.9
Q ss_pred eeccccCCCcccccchhHHHHHhhhccCc-e--ecCCCc-hHHHHHHHHHHh
Q psy12308 140 VVNRPYNTPIGLYSEQNIVDSINHHYKKT-V--VYDPAK-SETFKALQEEEL 187 (251)
Q Consensus 140 vVhkQfNSPIGLYSd~NIaeTl~~Q~K~~-v--~YDpan-SEtyRaLQEee~ 187 (251)
.|-.-|..||||||.. -.+|..-..+. + --||+| +-.|++||+.++
T Consensus 75 ~v~~~~~~p~glYS~k--~ksl~dl~~Ga~IaIPnDptN~~RaL~lL~~aGL 124 (245)
T 3ir1_A 75 EVFQVPTAPLGLYPGK--LKSLEEVKDGSTVSAPNDPSNFARVLVMLDELGW 124 (245)
T ss_dssp EEEECCBCCCEEEESS--CCCGGGCCTTCEEEEECSHHHHHHHHHHHHHTTS
T ss_pred EEeeecccceEEecCC--CCCHHHcCCCCEEEecCCccHHHHHHHHHHHCCC
Confidence 3456688999999974 12222222222 2 237766 457888888876
No 5
>3n29_A Carboxynorspermidine decarboxylase; lyase; HET: PLP; 1.90A {Campylobacter jejuni subsp}
Probab=22.94 E-value=26 Score=31.51 Aligned_cols=44 Identities=16% Similarity=0.058 Sum_probs=31.3
Q ss_pred ccccCCCcccccchhHHHHHhhh---c---cCceec----CCCchHHHHHHHHHH
Q psy12308 142 NRPYNTPIGLYSEQNIVDSINHH---Y---KKTVVY----DPAKSETFKALQEEE 186 (251)
Q Consensus 142 hkQfNSPIGLYSd~NIaeTl~~Q---~---K~~v~Y----DpanSEtyRaLQEee 186 (251)
-++|.||+-+|+...|.+.++.- . .-.+.| |+ +.+++++|.+.+
T Consensus 39 ~~~~~TP~yv~d~~~l~~n~~~l~~~~~~~~~~i~yAvKAN~-~~~vl~~l~~~G 92 (418)
T 3n29_A 39 YEKIQTPAYILEEDKLRKNCELLASVGEKSGAKVLLALKGFA-FSGAMKIVGEYL 92 (418)
T ss_dssp CTTCCSSEEEEEHHHHHHHHHHHHHHHHHHCCEEEEETTTCC-CGGGHHHHHHHS
T ss_pred HhhCCCCEEEEeHHHHHHHHHHHHHhhhhcCCEEEEEEccCC-CHHHHHHHHHcC
Confidence 47899999999999998887752 1 112333 33 467888888765
No 6
>2lnk_A Protein S100-A4; EF-hand, calcium binding, all alpha, metal binding protein, binding protein; NMR {Homo sapiens} PDB: 3c1v_A
Probab=18.92 E-value=2.5e+02 Score=20.75 Aligned_cols=18 Identities=6% Similarity=-0.044 Sum_probs=9.3
Q ss_pred CCCchHHHHHHHHHHhhC
Q psy12308 172 DPAKSETFKALQEEELVG 189 (251)
Q Consensus 172 DpanSEtyRaLQEee~~g 189 (251)
++...|+-+++.+-+.++
T Consensus 61 ~~t~~ev~~li~~~D~dg 78 (113)
T 2lnk_A 61 RTDEAAFQKLMSNLDSNR 78 (113)
T ss_dssp CCCTTHHHHHHHHHCSSS
T ss_pred CCCHHHHHHHHHHhCCCC
Confidence 344555555555555433
No 7
>3gxa_A Outer membrane lipoprotein GNA1946; periplasmic, L-methionine bingding, protein binding; 2.25A {Neisseria meningitidis}
Probab=16.98 E-value=34 Score=30.38 Aligned_cols=46 Identities=26% Similarity=0.385 Sum_probs=27.3
Q ss_pred eeccccCCCcccccchhHHHHHhhhccC-cee--cCCCc-hHHHHHHHHHHh
Q psy12308 140 VVNRPYNTPIGLYSEQNIVDSINHHYKK-TVV--YDPAK-SETFKALQEEEL 187 (251)
Q Consensus 140 vVhkQfNSPIGLYSd~NIaeTl~~Q~K~-~v~--YDpan-SEtyRaLQEee~ 187 (251)
.|-.-|..||||||.. -.+|..-..+ .+. -||+| +-.|++||+.++
T Consensus 97 ~v~~~~~~p~glYS~k--iksl~dL~~Ga~IAIPnDptN~~RaL~lL~~aGL 146 (275)
T 3gxa_A 97 EVFQVPTAPLGLYPGK--LKSLEEVKDGSTVSAPNDPSNFARVLVMLDELGW 146 (275)
T ss_dssp EEEECCBCCCEEEESS--CCCGGGCCTTCEEEEECSHHHHHHHHHHHHHTTS
T ss_pred EEeeccccceEEecCC--CCCHHHcCCCCEEEecCCccHHHHHHHHHHHCCC
Confidence 3456689999999964 1222222212 222 26655 456788888776
No 8
>1hsk_A UDP-N-acetylenolpyruvoylglucosamine reductase; peptidoglycan synthesis, cell WALL, cell division, oxidoreductase, NADP, flavoprotein, FAD; HET: FAD; 2.30A {Staphylococcus aureus} SCOP: d.145.1.2 d.146.1.1
Probab=15.49 E-value=65 Score=27.99 Aligned_cols=67 Identities=19% Similarity=0.273 Sum_probs=25.9
Q ss_pred ccCCCCCCCCCCchhHHHHHHHHHHhhhcCCCCCCCCCcceeccccCCCcccccchhHHHHHhhhccCceecCCCch-HH
Q psy12308 100 MRASPGHYEFGNSELSYKQKVADSVLNRVIPDSQSNPNRHVVNRPYNTPIGLYSEQNIVDSINHHYKKTVVYDPAKS-ET 178 (251)
Q Consensus 100 ~RAaPp~~d~~~~d~~mKQKvaetvlqrVvg~~~~~g~rkvVhkQfNSPIGLYSd~NIaeTl~~Q~K~~v~YDpanS-Et 178 (251)
||++++||.+. |.+|..-+++ |.+++|.+ .|.. +.++.-|+... + ......++-|.+- |+
T Consensus 1 ~~~~~~~~~~~--~~~~~~~~~~--l~~~l~~~------~v~~---~~~l~~~~t~~----~--~~~p~~vv~P~s~eev 61 (326)
T 1hsk_A 1 MRGSHHHHHHT--DPINKDIYQA--LQQLIPNE------KIKV---DEPLKRYTYTK----T--GGNADFYITPTKNEEV 61 (326)
T ss_dssp ----------------CHHHHHH--HHHHSCGG------GEEE---EEEGGGTCTTS----C--CCEEEEEECCSSHHHH
T ss_pred CCCcccccccC--CcchHHHHHH--HHHhcCcc------ceec---CcchHHhccCC----c--CCcceEEEEcCCHHHH
Confidence 67755555444 8888765543 55566643 2322 45566665321 1 1233445566655 45
Q ss_pred HHHHHHH
Q psy12308 179 FKALQEE 185 (251)
Q Consensus 179 yRaLQEe 185 (251)
.++|+..
T Consensus 62 ~~~l~~a 68 (326)
T 1hsk_A 62 QAVVKYA 68 (326)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 5555544
No 9
>1sf8_A Chaperone protein HTPG; four helix bundle dimerization interface, exposed amphipathic helix, three stranded beta sheet; 2.60A {Escherichia coli} SCOP: d.271.1.1
Probab=14.92 E-value=1.4e+02 Score=23.42 Aligned_cols=73 Identities=18% Similarity=0.177 Sum_probs=36.9
Q ss_pred ccCCCCCCCCCCchhHHHHHHHHHHhhhcCCCCCCCCCcceeccccCCCcccccch-----hHHHHHhhh------ccCc
Q psy12308 100 MRASPGHYEFGNSELSYKQKVADSVLNRVIPDSQSNPNRHVVNRPYNTPIGLYSEQ-----NIVDSINHH------YKKT 168 (251)
Q Consensus 100 ~RAaPp~~d~~~~d~~mKQKvaetvlqrVvg~~~~~g~rkvVhkQfNSPIGLYSd~-----NIaeTl~~Q------~K~~ 168 (251)
||++.+||.+.+--..||..+.+.|..= +|=++--+||.-|=+++ |.+.-+++| .|+.
T Consensus 1 ~~~~~~~~~~~~~~~~~K~~L~dkV~~V-----------~vS~RL~~sPa~lv~~e~g~s~~Merimka~~~~~~~~k~~ 69 (126)
T 1sf8_A 1 MRGSHHHHHHGSFIDRVKALLGERVKDV-----------RLTHRLTDTPAIVSTDADEMSTQMAKLFAAAGQKVPEVKYI 69 (126)
T ss_dssp -----------CHHHHHHHHHGGGSSEE-----------EECCCCSSCCEEEECCTTSCCHHHHHHHHTTTSCCCCCCCE
T ss_pred CCCccccccchHHHHHHHHHhcCcccEE-----------EEeecccCCCEEEEecCcccCHHHHHHHHHhccccccCCee
Confidence 6887777777665666776655544331 12223337787776655 677777776 3566
Q ss_pred eecCCCchHHHHHHH
Q psy12308 169 VVYDPAKSETFKALQ 183 (251)
Q Consensus 169 v~YDpanSEtyRaLQ 183 (251)
...||...=+-++++
T Consensus 70 LEINp~HplIk~L~~ 84 (126)
T 1sf8_A 70 FELNPDHVLVKRAAD 84 (126)
T ss_dssp EEECTTSHHHHHHHH
T ss_pred eeECCCCHHHHHHHH
Confidence 677887766665554
No 10
>3c0t_A Mediator of RNA polymerase II transcription subunit 18; beta barrel, channel, protein-protein complex, activator, nucleus; 2.40A {Schizosaccharomyces pombe}
Probab=11.78 E-value=53 Score=28.59 Aligned_cols=27 Identities=30% Similarity=0.527 Sum_probs=15.0
Q ss_pred ccccccccCcccccccccCCCccccCCCCCcccccc
Q psy12308 59 KLTCRLFFQPYRTTPLVLPGAKVKKENPPTESYLRH 94 (251)
Q Consensus 59 ~~~~~~~~qPYRTtPLVlPGAKvkkd~~~tesYLrh 94 (251)
-.+..+.|.||| .|+.+| ..++||+|-
T Consensus 32 ~le~~mvfk~~~-~P~~~~--------r~ggsy~rv 58 (207)
T 3c0t_A 32 ILEFWVVYRPKD-VPPNLP--------RQPDSWLRL 58 (207)
T ss_dssp EEEEEEEEEEC-------C--------CCGGGSEEE
T ss_pred eeEEEEEeccCC-CCcccC--------CCCCceEEE
Confidence 356778889999 788877 246778874
Done!